Introduction | Installation | Examples | Analysis of H3K27M glioma from Fibin et al. Science 2018 | Input Data | Run scTHI.score | Tumor microenvironment classification | Session Info | References
Package: scTHI 1.25.0
Michele Ceccarelli
scTHI: Indentification of significantly activated ligand-receptor interactions across clusters of cells from single-cell RNA sequencing data
scTHI is an R package to identify active pairs of ligand-receptors from single cells in order to study,among others, tumor-host interactions. scTHI contains a set of signatures to classify cells from the tumor microenvironment.
Authors:
scTHI_1.25.0.tar.gz
scTHI_1.25.0.zip(r-4.7)scTHI_1.25.0.zip(r-4.6)scTHI_1.25.0.zip(r-4.5)
scTHI_1.25.0.tgz(r-4.6-any)scTHI_1.25.0.tgz(r-4.5-any)
scTHI_1.25.0.tar.gz(r-4.7-any)scTHI_1.25.0.tar.gz(r-4.6-any)
scTHI_1.25.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
scTHI/json (API)
| # Install 'scTHI' in R: |
| install.packages('scTHI', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/miccec/scthi/issues
On BioConductor:scTHI-1.25.0(bioc 3.24)scTHI-1.24.0(bioc 3.23)
Last updated from:d2fa1dc894. Checks:1 NOTE, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 144 | ||
| linux-devel-x86_64 | OK | 177 | ||
| source / vignettes | OK | 205 | ||
| linux-release-x86_64 | OK | 179 | ||
| macos-release-arm64 | OK | 145 | ||
| macos-oldrel-arm64 | OK | 136 | ||
| windows-devel | OK | 164 | ||
| windows-release | OK | 119 | ||
| windows-oldrel | OK | 130 | ||
| wasm-release | OK | 121 |
Exports:scTHI_plotClusterscTHI_plotPairsscTHI_plotResultscTHI_runTsnescTHI_scoreTME_classificationTME_plot
Dependencies:BHBiocParallelcodetoolscpp11formatRfutile.loggerfutile.optionslambda.rRcppRtsnesnow
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| single cell Tumor Hist Interaction (scTHI) | scTHI-package scTHI |
| scTHI_plotCluster | scTHI_plotCluster |
| scTHI_plotPairs | scTHI_plotPairs |
| scTHI_plotResult | scTHI_plotResult |
| scTHI_runTsne | scTHI_runTsne |
| scTHI_score | scTHI_score |
| TME_classification | TME_classification |
| TME_plot | TME_plot |
